Alternatives and similar repositories for GNNome-assembly

Users that are interested in GNNome-assembly are comparing it to the libraries listed below

• lbcb-sci / GNNome
  A framework for training graph neural networks to untangle assembly graphs obtained from OLC-based de novo genome assemblers.
  ☆47Updated last month
• dnbaker / bioseq
  Tokenizers and Machine Learning Models for biological sequence data
  ☆25Updated 9 months ago
• TattaBio / DGEB
  Diverse Genomic Embedding Benchmark
  ☆46Updated 3 months ago
• TurtleTools / caretta
  A software-suite to perform multiple protein structure alignment and structure feature extraction.
  ☆29Updated last year
• bcgsc / ntEmbd
  Deep learning embedding for nucleotide sequences
  ☆19Updated 3 months ago
• althonos / pyfamsa
  Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
  ☆32Updated last month
• OATML / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆66Updated 2 years ago
• althonos / pytrimal
  Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!
  ☆26Updated 2 months ago
• JJAlmagro / TargetP-2.0
  Detecting Sequence Signals in Targeting Peptides Using Deep Learning
  ☆13Updated 5 years ago
• cbcrg / msa-af2-nf
  Nextflow pipeline for the computation of structure-based MSAs with AlphaFold2 models
  ☆12Updated 2 years ago
• bioinf-mcb / Metagenomic-DeepFRI
  Pipeline for searching and aligning contact maps for proteins, then running DeepFri's GCN.
  ☆40Updated last month
• liudan111 / EvoMIL
  Prediction of virus-host association using protein language models and multiple instance learning
  ☆17Updated last year
• y-hwang / gLM
  Genomic language model predicts protein co-regulation and function
  ☆82Updated 3 months ago
• Protein-Sequence-Annotation / PSALM
  Protein Sequence Annotation with Language Models
  ☆23Updated last month
• refresh-bio / FAMSA
  Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
  ☆158Updated 10 months ago
• allydunham / sequence_unet
  Fully convolutional deep learning variant effect predictor architecture
  ☆23Updated last year
• MedChaabane / deepRAM
  End-to-end deep learning toolkit for predicting protein binding sites and motifs.
  ☆45Updated 6 years ago
• kaistsystemsbiology / DeepProZyme
  DeepECtransformer
  ☆26Updated last year
• minmarg / comer2
  Fast, sensitive and accurate protein remote homology search on GPUs
  ☆16Updated last year
• althonos / pymuscle5
  Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.
  ☆21Updated last year
• TimoLassmann / kalign
  A fast multiple sequence alignment program.
  ☆142Updated last week
• althonos / rich-msa
  A Rich renderable for viewing Multiple Sequence Alignments in the terminal.
  ☆85Updated 3 years ago
• Rostlab / goPredSim
  ☆47Updated 7 months ago
• Genentech / polygraph
  Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …
  ☆33Updated 3 months ago
• mourisl / MSAplot
  Plot multiple sequence alignment (MSA)
  ☆15Updated 9 months ago
• althonos / lightmotif
  A lightweight platform-accelerated library for biological motif scanning using position weight matrices.
  ☆51Updated last month
• tlawrence3 / amPEPpy
  ☆25Updated last year
• Benjamin-Lee / CodonAdaptationIndex
  Python Implementation of Codon Adaption Index
  ☆37Updated 2 years ago
• santiago1234 / iCodon
  iCodon customizes gene expression based on the codon composition
  ☆15Updated last year
• Illumina / PrimateAI-3D
  ☆66Updated 4 months ago